VCF-kit: Assorted utilities for the variant call format

Daniel E. Cook, Erik C. Andersen*

*Corresponding author for this work

Research output: Contribution to journalArticle

18 Scopus citations

Abstract

Summary: The variant call format (VCF) is a popular standard for storing genetic variation data. As a result, a large collection of tools has been developed that perform diverse analyses using VCF files. However, some tasks common to statistical and population geneticists have not been created yet. To streamline these types of analyses, we created novel tools that analyze or annotate VCF files and organized these tools into a command-line based utility named VCF-kit. VCF-kit adds essential utilities to process and analyze VCF files, including primer generation for variant validation, dendrogram production, genotype imputation from sequence data in linkage studies, and additional tools. Availability and Implementation: https://github.com/AndersenLab/VCF-kit .

Original languageEnglish (US)
Pages (from-to)1581-1582
Number of pages2
JournalBioinformatics
Volume33
Issue number10
DOIs
StatePublished - May 15 2017

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

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